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Detecting selection using a single genome sequence of M. tuberculosis and P. falciparum.
Plotkin JB, Dushoff J, Fraser HB. Plotkin JB, et al. Among authors: dushoff j. Nature. 2004 Apr 29;428(6986):942-5. doi: 10.1038/nature02458. Nature. 2004. PMID: 15118727
The combined effects of pathogens and predators on insect outbreaks.
Dwyer G, Dushoff J, Yee SH. Dwyer G, et al. Among authors: dushoff j. Nature. 2004 Jul 15;430(6997):341-5. doi: 10.1038/nature02569. Nature. 2004. PMID: 15254536
The entomological inoculation rate and Plasmodium falciparum infection in African children.
Smith DL, Dushoff J, Snow RW, Hay SI. Smith DL, et al. Among authors: dushoff j. Nature. 2005 Nov 24;438(7067):492-5. doi: 10.1038/nature04024. Nature. 2005. PMID: 16306991 Free PMC article.
Estimating selection pressures from limited comparative data.
Plotkin JB, Dushoff J, Desai MM, Fraser HB. Plotkin JB, et al. Among authors: dushoff j. Mol Biol Evol. 2006 Aug;23(8):1457-9. doi: 10.1093/molbev/msl021. Epub 2006 Jun 5. Mol Biol Evol. 2006. PMID: 16754640
Codon usage and selection on proteins.
Plotkin JB, Dushoff J, Desai MM, Fraser HB. Plotkin JB, et al. Among authors: dushoff j. J Mol Evol. 2006 Nov;63(5):635-53. doi: 10.1007/s00239-005-0233-x. Epub 2006 Oct 14. J Mol Evol. 2006. PMID: 17043750
Recently we introduced a novel method, termed volatility, to estimate selection pressures on proteins on the basis of their synonymous codon usage (Plotkin and Dushoff 2003; Plotkin et al. 2004). ...
Recently we introduced a novel method, termed volatility, to estimate selection pressures on proteins on the basis of their synonymous codon …
Codon bias and frequency-dependent selection on the hemagglutinin epitopes of influenza A virus.
Plotkin JB, Dushoff J. Plotkin JB, et al. Among authors: dushoff j. Proc Natl Acad Sci U S A. 2003 Jun 10;100(12):7152-7. doi: 10.1073/pnas.1132114100. Epub 2003 May 14. Proc Natl Acad Sci U S A. 2003. PMID: 12748378 Free PMC article.
Persistent colonization and the spread of antibiotic resistance in nosocomial pathogens: resistance is a regional problem.
Smith DL, Dushoff J, Perencevich EN, Harris AD, Levin SA. Smith DL, et al. Among authors: dushoff j. Proc Natl Acad Sci U S A. 2004 Mar 9;101(10):3709-14. doi: 10.1073/pnas.0400456101. Epub 2004 Feb 25. Proc Natl Acad Sci U S A. 2004. PMID: 14985511 Free PMC article.
A simulation model of African Anopheles ecology and population dynamics for the analysis of malaria transmission.
Depinay JM, Mbogo CM, Killeen G, Knols B, Beier J, Carlson J, Dushoff J, Billingsley P, Mwambi H, Githure J, Toure AM, McKenzie FE. Depinay JM, et al. Among authors: dushoff j. Malar J. 2004 Jul 30;3:29. doi: 10.1186/1475-2875-3-29. Malar J. 2004. PMID: 15285781 Free PMC article.
The risk of a mosquito-borne infection in a heterogeneous environment.
Smith DL, Dushoff J, McKenzie FE. Smith DL, et al. Among authors: dushoff j. PLoS Biol. 2004 Nov;2(11):e368. doi: 10.1371/journal.pbio.0020368. Epub 2004 Oct 26. PLoS Biol. 2004. PMID: 15510228 Free PMC article.
Bursts of nonsynonymous substitutions in HIV-1 evolution reveal instances of positive selection at conservative protein sites.
Bazykin GA, Dushoff J, Levin SA, Kondrashov AS. Bazykin GA, et al. Among authors: dushoff j. Proc Natl Acad Sci U S A. 2006 Dec 19;103(51):19396-401. doi: 10.1073/pnas.0609484103. Epub 2006 Dec 12. Proc Natl Acad Sci U S A. 2006. PMID: 17164328 Free PMC article.
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